/usr/include/ncbi/seqmtrx.h is in libvibrant6-dev 6.1.20120620-7.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 | #ifndef _SEQMTRX_
#define _SEQMTRX_
#ifndef _NCBI_Seqres_
#include <objres.h>
#endif
#ifndef _NCBI_Seq_
#include <objseq.h>
#endif
#ifdef __cplusplus
extern "C" {
#endif
/* defines */
#define NA_MATRIX 0
#define NA_MATRIX_DONOR1 1
#define NA_MATRIX_DONOR2 2
#define NA_MATRIX_ACCEPT 3
#define NA_MATRIX_BRANCH 4
#define NA_MATRIX_HR 5
#define NA_MATRIX_USERDATA 6
#define AA_MATRIX 100
/* structures */
typedef struct compilematrix
{
Int4 min;
Int4 max;
Int4 res[32];
struct compilematrix PNTR next;
} ComMat, PNTR ComMatPtr;
/* prototypes */
extern ComMatPtr ComMatFree (ComMatPtr headcmtp);
extern ComMatPtr CompileMatrix (FloatHi scr[32][32], Int4 len, Int4 maxval);
extern void InvertMatrix (ComMatPtr cmtp, Int4 window);
extern Int4 ReadMatrix (CharPtr res, FloatHi scr[32][32],
CharPtr filename);
extern Int4 GridMatchSetUp (CharPtr seq);
extern Int4 GridMatch (CharPtr seqhead, Int4 cur, Int4 end, Int4 matlen,
ComMatPtr cmtphead, Int4Ptr matval, Int4 maxval);
extern SeqGraphPtr MatrixSeq (BioseqPtr bsp, SeqGraphPtr sgptr,
ComMatPtr cmtp, Int4 window);
Int2 LIBCALLBACK SeqMatFunc (Pointer data);
#define REGISTER_GROUP_MATRIX ObjMgrProcLoadEx (OMPROC_FILTER, \
"BacEnhancer", "Enhancer Scan", \
OBJ_BIOSEQ, 0, OBJ_BIOSEQ, 0, \
NULL, SeqMatFunc, PROC_PRIORITY_DEFAULT, "Analysis")
#ifdef __cplusplus
}
#endif
#endif
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